Accurate transcription initiation on TATA-containing class II genes involves the ordered assembly of RNA polymerase II (POLR2A; MIM 180660) and the general initiation factors TFIIA, TFIIB (MIM 189963), TFIID (MIM 313650), TFIIE (MIM 189962), TFIIF (MIM 189968), TFIIG/TFIIJ, and TFIIH (MIM 189972). The first step involves recognition of the TATA element by the TATA-binding subunit (TBP; MIM 600075) and may be regulated by TFIIA, a factor that interacts with both TBP and a TBP-associated factor (TAF; MIM 600475) in TFIID. TFIIA has 2 subunits (43 and 12 kD) in yeast and 3 subunits in higher eukaryotes. In HeLa extracts, it consists of a 35-kD alpha subunit and a 19-kD beta subunit encoded by the N- and C-terminal regions of GTF2A1 (MIM 600520), respectively, and a 12-kD gamma subunit encoded by GTF2A2 (DeJong et al., 1995 [PubMed 7724559]).[supplied by OMIM, Mar 2008]
Transcription factors with Perturb-seq knockdown data for GTF2A2. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = GTF2A2 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.
| TF | Mean coef | Binding | Outlier | TF→Gene link |
|---|
Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of GTF2A2, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.
| Accessibility | Element | Dist. to TSS | Link type | TFs |
|---|---|---|---|---|
| chr15:59,371,762–59,373,314 | 284.6 kb | Distal (>10kb) Multiome | 794 | |
| chr15:59,437,777–59,438,609 | 219.3 kb | Distal (>10kb) Multiome | 381 | |
| chr15:59,549,058–59,550,248 | 107.5 kb | Distal (>10kb) Multiome | 175 | |
| chr15:59,657,112–59,657,938 | 55 bp | At TSS Multiome | 777 | |
| chr15:59,688,678–59,689,653 | 31.9 kb | Distal (>10kb) Multiome | 878 | |
| chr15:59,785,977–59,786,995 | 129.0 kb | Distal (>10kb) Multiome | 90 | |
| chr15:59,814,354–59,814,841 | 157.1 kb | Distal (>10kb) Multiome | 75 | |
| chr15:59,872,519–59,873,058 | 215.2 kb | Distal (>10kb) Multiome | 12 |
Genomic view of the GTF2A2 locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.